---
OA_place: publisher
OA_type: hybrid
_id: '20318'
abstract:
- lang: eng
text: Lipid membranes and membrane deformations are a long-standing area of research
in soft matter and biophysics. Computer simulations have complemented analytical
and experimental approaches as one of the pillars in the field. However, setting
up and using membrane simulations can come with barriers due to the multidisciplinary
effort involved and the vast choice of existing simulations models. In this review,
we introduce the non-expert reader to coarse-grained membrane simulations at the
mesoscale. Firstly, we give a concise overview of the modelling approaches to
study fluid membranes, together with guidance to more specialized references.
Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations.
Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations,
by providing a pedagogical examination of membrane tether pulling, shape and mechanics
of membrane tubes, and membrane fluctuations with three different membrane models,
and discussing them in terms of their scope and how resource-intensive they are.
To ease the reader's venture into the field, we provide a repository with ready-to-run
tutorials.
acknowledgement: We thank Oded Farago, Angelo Cacciuto, Jeriann Beiter and Pietro
Sillano for helpful discussions and a critical reading of the manuscript. MMB and
AP acknowledge funding by the European Unions Horizon 2020 research and innovation
programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. FF acknowledges
financial support by the NOMIS foundation. BM and AŠ acknowledge funding by ERC
Starting Grant “NEPA” 802960. MA and AŠ acknowledge funding by the Volkswagen Foundation
Grant Az 96727.
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Maitane
full_name: Muñoz Basagoiti, Maitane
id: 1a8a7950-82cd-11ed-bd4f-9624c913a607
last_name: Muñoz Basagoiti
orcid: 0000-0003-1483-1457
- first_name: Felix F
full_name: Frey, Felix F
id: a0270b37-8f1a-11ec-95c7-8e710c59a4f3
last_name: Frey
orcid: 0000-0001-8501-6017
- first_name: Billie
full_name: Meadowcroft, Billie
id: a4725fd6-932b-11ed-81e2-c098c7f37ae1
last_name: Meadowcroft
orcid: 0000-0003-3441-1337
- first_name: Miguel
full_name: Santana de Freitas Amaral, Miguel
id: 4f2d02dd-47a9-11ec-ad10-82820ed3f501
last_name: Santana de Freitas Amaral
- first_name: Adam
full_name: Prada, Adam
id: a43ed60a-dd22-11ed-9bf7-b34133792ea9
last_name: Prada
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
citation:
ama: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
A, Šarić A. A tutorial for mesoscale computer simulations of lipid membranes:
Tether pulling, tubulation and fluctuations. Soft Matter. 2025;21(40):7736-7756.
doi:10.1039/d5sm00148j'
apa: 'Muñoz Basagoiti, M., Frey, F. F., Meadowcroft, B., Santana de Freitas Amaral,
M., Prada, A., & Šarić, A. (2025). A tutorial for mesoscale computer simulations
of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter.
Royal Society of Chemistry. https://doi.org/10.1039/d5sm00148j'
chicago: 'Muñoz Basagoiti, Maitane, Felix F Frey, Billie Meadowcroft, Miguel Santana
de Freitas Amaral, Adam Prada, and Anđela Šarić. “A Tutorial for Mesoscale Computer
Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.”
Soft Matter. Royal Society of Chemistry, 2025. https://doi.org/10.1039/d5sm00148j.'
ieee: 'M. Muñoz Basagoiti, F. F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
A. Prada, and A. Šarić, “A tutorial for mesoscale computer simulations of lipid
membranes: Tether pulling, tubulation and fluctuations,” Soft Matter, vol.
21, no. 40. Royal Society of Chemistry, pp. 7736–7756, 2025.'
ista: 'Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada
A, Šarić A. 2025. A tutorial for mesoscale computer simulations of lipid membranes:
Tether pulling, tubulation and fluctuations. Soft Matter. 21(40), 7736–7756.'
mla: 'Muñoz Basagoiti, Maitane, et al. “A Tutorial for Mesoscale Computer Simulations
of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” Soft Matter,
vol. 21, no. 40, Royal Society of Chemistry, 2025, pp. 7736–56, doi:10.1039/d5sm00148j.'
short: M. Muñoz Basagoiti, F.F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral,
A. Prada, A. Šarić, Soft Matter 21 (2025) 7736–7756.
corr_author: '1'
date_created: 2025-09-10T05:34:36Z
date_published: 2025-07-28T00:00:00Z
date_updated: 2025-12-30T10:16:52Z
day: '28'
ddc:
- '540'
department:
- _id: AnSa
doi: 10.1039/d5sm00148j
ec_funded: 1
external_id:
arxiv:
- '2502.09798'
isi:
- '001562846800001'
file:
- access_level: open_access
checksum: 590bedad19b6f6d40a7ee036a056a6d9
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T10:16:40Z
date_updated: 2025-12-30T10:16:40Z
file_id: '20912'
file_name: 2025_SoftMatter_MunozBasagoiti.pdf
file_size: 4841140
relation: main_file
success: 1
file_date_updated: 2025-12-30T10:16:40Z
has_accepted_license: '1'
intvolume: ' 21'
isi: 1
issue: '40'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '07'
oa: 1
oa_version: Published Version
page: 7736-7756
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
call_identifier: H2020
grant_number: '802960'
name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
name: NOMIS Fellowship Program
- _id: eba0f67c-77a9-11ec-83b8-cc8501b3e222
grant_number: '96752'
name: 'The evolution of trafficking: from archaea to eukaryotes'
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling,
tubulation and fluctuations'
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2025'
...
---
OA_place: repository
OA_type: green
_id: '21237'
abstract:
- lang: eng
text: Intelligent soft matter lies at the intersection of materials science, physics,
and cognitive science, promising to change how we design and interact with materials.
This transformative field aims to create materials with life-like capabilities,
such as perception, learning, memory, and adaptive behavior. Unlike traditional
materials, which typically perform static or predefined functions, intelligent
soft matter can dynamically interact with its environment, integrating multiple
sensory inputs, retaining past experiences, and making decisions to optimize its
responses. Inspired by biological systems, these materials leverage the inherent
properties of soft matter such as flexibility, adaptability, and responsiveness
to perform functions that mimic cognitive processes. By synthesizing current research
trends and projecting their evolution, we present a forward-looking perspective
on how intelligent soft matter could be constructed, with the aim of inspiring
innovations in areas such as biomedical devices, adaptive robotics, and beyond.
We highlight new pathways for integrating sensing, memory and actuation with low-power
internal operations, and we discuss key challenges in realizing materials that
exhibit truly “intelligent behavior”. These approaches outline a path toward more
robust, versatile, and scalable materials that can potentially act, compute, and
“think” through their inherent intrinsic material properties—moving beyond traditional
smart technologies that rely on external control.
acknowledgement: 'The work is the result of the SoftComp Topical workshop on Intelligent
Soft Matter, Salou 2025 (https://softmat.net/intelligent-soft-matter/) financed
by SoftComp Network of Excellence (https://eu-softcomp.net/). Various AI tools were
used for preparation of the manuscript: language models Google Gemini 2.0 series
and Discovery Engine (https://explore-the-unknown.vercel.app) for literature processing,
structuring contributions, finding concept overlaps and summarizing according to
procedure explained in https://github.com/vbaulin/IntelliDE/.'
article_processing_charge: No
article_type: review
author:
- first_name: Vladimir A.
full_name: Baulin, Vladimir A.
last_name: Baulin
- first_name: Achille
full_name: Giacometti, Achille
last_name: Giacometti
- first_name: Dmitry A.
full_name: Fedosov, Dmitry A.
last_name: Fedosov
- first_name: Stephen
full_name: Ebbens, Stephen
last_name: Ebbens
- first_name: Nydia R.
full_name: Varela-Rosales, Nydia R.
last_name: Varela-Rosales
- first_name: Neus
full_name: Feliu, Neus
last_name: Feliu
- first_name: Mithun
full_name: Chowdhury, Mithun
last_name: Chowdhury
- first_name: Minghan
full_name: Hu, Minghan
last_name: Hu
- first_name: Rudolf
full_name: Füchslin, Rudolf
last_name: Füchslin
- first_name: Marjolein
full_name: Dijkstra, Marjolein
last_name: Dijkstra
- first_name: Matan
full_name: Mussel, Matan
last_name: Mussel
- first_name: René
full_name: van Roij, René
last_name: van Roij
- first_name: Dong
full_name: Xie, Dong
last_name: Xie
- first_name: Vassil
full_name: Tzanov, Vassil
last_name: Tzanov
- first_name: Mengjie
full_name: Zu, Mengjie
id: 26dd9e7c-e86a-11eb-a854-82ac731c9ae2
last_name: Zu
- first_name: Samuel
full_name: Hidalgo-Caballero, Samuel
last_name: Hidalgo-Caballero
- first_name: Ye
full_name: Yuan, Ye
last_name: Yuan
- first_name: Luca
full_name: Cocconi, Luca
last_name: Cocconi
- first_name: Cheol-Min
full_name: Ghim, Cheol-Min
last_name: Ghim
- first_name: Cécile
full_name: Cottin-Bizonne, Cécile
last_name: Cottin-Bizonne
- first_name: M. Carmen
full_name: Miguel, M. Carmen
last_name: Miguel
- first_name: Maria Jose
full_name: Esplandiu, Maria Jose
last_name: Esplandiu
- first_name: Juliane
full_name: Simmchen, Juliane
last_name: Simmchen
- first_name: Wolfgang J.
full_name: Parak, Wolfgang J.
last_name: Parak
- first_name: Marco
full_name: Werner, Marco
last_name: Werner
- first_name: Gerhard
full_name: Gompper, Gerhard
last_name: Gompper
- first_name: Martin M.
full_name: Hanczyc, Martin M.
last_name: Hanczyc
citation:
ama: 'Baulin VA, Giacometti A, Fedosov DA, et al. Intelligent soft matter: Towards
embodied intelligence. Soft Matter. 2025;(21):4129-4145. doi:10.1039/d5sm00174a'
apa: 'Baulin, V. A., Giacometti, A., Fedosov, D. A., Ebbens, S., Varela-Rosales,
N. R., Feliu, N., … Hanczyc, M. M. (2025). Intelligent soft matter: Towards embodied
intelligence. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/d5sm00174a'
chicago: 'Baulin, Vladimir A., Achille Giacometti, Dmitry A. Fedosov, Stephen Ebbens,
Nydia R. Varela-Rosales, Neus Feliu, Mithun Chowdhury, et al. “Intelligent Soft
Matter: Towards Embodied Intelligence.” Soft Matter. Royal Society of Chemistry,
2025. https://doi.org/10.1039/d5sm00174a.'
ieee: 'V. A. Baulin et al., “Intelligent soft matter: Towards embodied intelligence,”
Soft Matter, no. 21. Royal Society of Chemistry, pp. 4129–4145, 2025.'
ista: 'Baulin VA, Giacometti A, Fedosov DA, Ebbens S, Varela-Rosales NR, Feliu N,
Chowdhury M, Hu M, Füchslin R, Dijkstra M, Mussel M, van Roij R, Xie D, Tzanov
V, Zu M, Hidalgo-Caballero S, Yuan Y, Cocconi L, Ghim C-M, Cottin-Bizonne C, Miguel
MC, Esplandiu MJ, Simmchen J, Parak WJ, Werner M, Gompper G, Hanczyc MM. 2025.
Intelligent soft matter: Towards embodied intelligence. Soft Matter. (21), 4129–4145.'
mla: 'Baulin, Vladimir A., et al. “Intelligent Soft Matter: Towards Embodied Intelligence.”
Soft Matter, no. 21, Royal Society of Chemistry, 2025, pp. 4129–45, doi:10.1039/d5sm00174a.'
short: V.A. Baulin, A. Giacometti, D.A. Fedosov, S. Ebbens, N.R. Varela-Rosales,
N. Feliu, M. Chowdhury, M. Hu, R. Füchslin, M. Dijkstra, M. Mussel, R. van Roij,
D. Xie, V. Tzanov, M. Zu, S. Hidalgo-Caballero, Y. Yuan, L. Cocconi, C.-M. Ghim,
C. Cottin-Bizonne, M.C. Miguel, M.J. Esplandiu, J. Simmchen, W.J. Parak, M. Werner,
G. Gompper, M.M. Hanczyc, Soft Matter (2025) 4129–4145.
date_created: 2026-02-16T15:03:08Z
date_published: 2025-06-07T00:00:00Z
date_updated: 2026-02-17T11:27:48Z
day: '07'
department:
- _id: CaGo
doi: 10.1039/d5sm00174a
external_id:
pmid:
- '40358970'
issue: '21'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprints.whiterose.ac.uk/id/eprint/226553/4/Perspective_v6_clean.pdf
month: '06'
oa: 1
oa_version: Submitted Version
page: 4129-4145
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: 'Intelligent soft matter: Towards embodied intelligence'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2025'
...
---
_id: '14087'
abstract:
- lang: eng
text: Polar active matter of self-propelled particles sustain spontaneous flows
through the full-integer topological defects. We study theoretically the incompressible
flow profiles around ±1 defects induced by polar and dipolar active forces. We
show that dipolar forces induce vortical flows around the +1 defect, while the
flow around the −1 defect has an 8-fold rotational symmetry. The vortical flow
changes its chirality near the +1 defect core in the absence of the friction with
a substrate. We show analytically that the flow induced by polar active forces
is vortical near the +1 defect and is 4-fold symmetric near the −1 defect, while
it becomes uniform in the far-field. For a pair of oppositely charged defects,
this polar flow contributes to a mutual interaction force that depends only on
the orientation of the defect pair relative to the background polarization, and
that enhances defect pair annihilation. This is in contradiction with the effect
of dipolar active forces which decay inversely proportional with the defect separation
distance. As such, our analyses reveals a long-ranged mechanism for the pairwise
interaction between topological defects in polar active matter.
acknowledgement: J. Rø and L. A. acknowledge support from the Research Council of
Norway through the Center of Excellence funding scheme, Project No. 262644 (PoreLab).
A. D. acknowledges funding from the Novo Nordisk Foundation (grant No. NNF18SA0035142
and NERD grant No. NNF21OC0068687), Villum Fonden Grant no. 29476, and the European
Union via the ERC-Starting Grant PhysCoMeT. Views and opinions expressed are however
those of the authors only and do not necessarily reflect those of the European Union
or the European Research Council. Neither the European Union nor the granting authority
can be held responsible for them.
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Jonas
full_name: Rønning, Jonas
last_name: Rønning
- first_name: Julian B
full_name: Renaud, Julian B
id: 7af6767d-14eb-11ed-b536-a32449ae867c
last_name: Renaud
- first_name: Amin
full_name: Doostmohammadi, Amin
last_name: Doostmohammadi
- first_name: Luiza
full_name: Angheluta, Luiza
last_name: Angheluta
citation:
ama: Rønning J, Renaud JB, Doostmohammadi A, Angheluta L. Spontaneous flows and
dynamics of full-integer topological defects in polar active matter. Soft Matter.
2023;39:7513-7527. doi:10.1039/d3sm00316g
apa: Rønning, J., Renaud, J. B., Doostmohammadi, A., & Angheluta, L. (2023).
Spontaneous flows and dynamics of full-integer topological defects in polar active
matter. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/d3sm00316g
chicago: Rønning, Jonas, Julian B Renaud, Amin Doostmohammadi, and Luiza Angheluta.
“Spontaneous Flows and Dynamics of Full-Integer Topological Defects in Polar Active
Matter.” Soft Matter. Royal Society of Chemistry, 2023. https://doi.org/10.1039/d3sm00316g.
ieee: J. Rønning, J. B. Renaud, A. Doostmohammadi, and L. Angheluta, “Spontaneous
flows and dynamics of full-integer topological defects in polar active matter,”
Soft Matter, vol. 39. Royal Society of Chemistry, pp. 7513–7527, 2023.
ista: Rønning J, Renaud JB, Doostmohammadi A, Angheluta L. 2023. Spontaneous flows
and dynamics of full-integer topological defects in polar active matter. Soft
Matter. 39, 7513–7527.
mla: Rønning, Jonas, et al. “Spontaneous Flows and Dynamics of Full-Integer Topological
Defects in Polar Active Matter.” Soft Matter, vol. 39, Royal Society of
Chemistry, 2023, pp. 7513–27, doi:10.1039/d3sm00316g.
short: J. Rønning, J.B. Renaud, A. Doostmohammadi, L. Angheluta, Soft Matter 39
(2023) 7513–7527.
date_created: 2023-08-20T22:01:15Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2025-04-23T13:03:12Z
day: '01'
ddc:
- '540'
department:
- _id: GradSch
doi: 10.1039/d3sm00316g
external_id:
arxiv:
- '2303.07063'
isi:
- '001035766100001'
pmid:
- '37493084'
file:
- access_level: open_access
checksum: b936747170d0b708172b518078c4081a
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T12:48:24Z
date_updated: 2024-01-30T12:48:24Z
file_id: '14908'
file_name: 2023_SoftMatter_Ronning.pdf
file_size: 7660662
relation: main_file
success: 1
file_date_updated: 2024-01-30T12:48:24Z
has_accepted_license: '1'
intvolume: ' 39'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 7513-7527
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Spontaneous flows and dynamics of full-integer topological defects in polar
active matter
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 39
year: '2023'
...
---
_id: '12708'
abstract:
- lang: eng
text: Self-organisation is the spontaneous emergence of spatio-temporal structures
and patterns from the interaction of smaller individual units. Examples are found
across many scales in very different systems and scientific disciplines, from
physics, materials science and robotics to biology, geophysics and astronomy.
Recent research has highlighted how self-organisation can be both mediated and
controlled by confinement. Confinement is an action over a system that limits
its units’ translational and rotational degrees of freedom, thus also influencing
the system's phase space probability density; it can function as either a catalyst
or inhibitor of self-organisation. Confinement can then become a means to actively
steer the emergence or suppression of collective phenomena in space and time.
Here, to provide a common framework and perspective for future research, we examine
the role of confinement in the self-organisation of soft-matter systems and identify
overarching scientific challenges that need to be addressed to harness its full
scientific and technological potential in soft matter and related fields. By drawing
analogies with other disciplines, this framework will accelerate a common deeper
understanding of self-organisation and trigger the development of innovative strategies
to steer it using confinement, with impact on, e.g., the design of smarter materials,
tissue engineering for biomedicine and in guiding active matter.
acknowledgement: 'All authors are grateful to the Lorentz Center for providing a venue
for stimulating scientific discussions and to sponsor a workshop on the topic of
“Self-organisation under confinement” along with the 4TU Federation, the J. M. Burgers
Center for Fluid Dynamics and the MESA+ Institute for Nanotechnology at the University
of Twente. The authors are also grateful to Paolo Malgaretti, Federico Toschi, Twan
Wilting and Jaap den Toonder for valuable feedback. N. A. acknowledges financial
support from the Portuguese Foundation for Science and Technology (FCT) under Contracts
no. PTDC/FIS-MAC/28146/2017 (LISBOA-01-0145-FEDER-028146), UIDB/00618/2020, and
UIDP/00618/2020. L. M. C. J. acknowledges financial support from the Netherlands
Organisation for Scientific Research (NWO) through a START-UP, Physics Projectruimte,
and Vidi grant. I. C. was supported in part by a grant from by the Army Research
Office (ARO W911NF-18-1-0032) and the Cornell Center for Materials Research (DMR-1719875).
O. D. acknowledges funding by the Agence Nationale pour la Recherche under Grant
No ANR-18-CE33-0006 MSR. M. D. acknowledges financial support from the European
Research Council (Grant No. ERC-2019-ADV-H2020 884902 SoftML). W. M. D. acknowledges
funding from a BBSRC New Investigator Grant (BB/R018383/1). S. G. was supported
by DARPA Young Faculty Award # D19AP00046, and NSF IIS grant # 1955210. H. G. acknowledges
financial support from the Netherlands Organisation for Scientific Research (NWO)
through Veni Grant No. 680-47-451. R. G. acknowledges support from the Max Planck
School Matter to Life and the MaxSynBio Consortium, which are jointly funded by
the Federal Ministry of Education and Research (BMBF) of Germany, and the Max Planck
Society. L. I. acknowledges funding from the Horizon Europe ERC Consolidator Grant
ACTIVE_ ADAPTIVE (Grant No. 101001514). G. H. K. gratefully acknowledges the NWO
Talent Programme which is financed by the Dutch Research Council (project number
VI.C.182.004). H. L. and N. V. acknowledge funding from the Deutsche Forschungsgemeinschaft
(DFG) under grant numbers VO 1824/8-1 and LO 418/22-1. R. M. acknowledges funding
from the Deutsche Forschungsgemeinschaft (DFG) under grant number ME 1535/13-1 and
ME 1535/16-1. M. P. acknowledges funding from the Ramón y Cajal Program, grant no.
RYC-2018-02534, and the Leverhulme Trust, grant no. RPG-2018-345. A. Š. acknowledges
financial support from the European Research Council (Grant No. ERC-2018-STG-H2020
802960 NEPA). A. S. acknowledges funding from an ATTRACT Investigator Grant (No.
A17/MS/11572821/MBRACE) from the Luxembourg National Research Fund. C. S. acknowledges
funding from the French Agence Nationale pour la Recherche (ANR), grant ANR-14-CE090006
and ANR-12-BSV5001401, by the Fondation pour la Recherche Médicale (FRM), grant
DEQ20120323737, and from the PIC3I of Institut Curie, France. I. T. acknowledges
funding from grant IED2019-00058I/AEI/10.13039/501100011033. M. P. and I. T. also
acknowledge funding from grant PID2019-104232B-I00/AEI/10.13039/501100011033 and
from the H2020 MSCA ITN PHYMOT (Grant agreement No 95591). I. Z. acknowledges funding
from Project PID2020-114839GB-I00 MINECO/AEI/FEDER, UE. A. M. acknowledges funding
from the European Research Council, Starting Grant No. 678573 NanoPacks. G. V. acknowledges
sponsorship for this work by the US Office of Naval Research Global (Award No. N62909-18-1-2170).'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nuno A.M.
full_name: Araújo, Nuno A.M.
last_name: Araújo
- first_name: Liesbeth M.C.
full_name: Janssen, Liesbeth M.C.
last_name: Janssen
- first_name: Thomas
full_name: Barois, Thomas
last_name: Barois
- first_name: Guido
full_name: Boffetta, Guido
last_name: Boffetta
- first_name: Itai
full_name: Cohen, Itai
last_name: Cohen
- first_name: Alessandro
full_name: Corbetta, Alessandro
last_name: Corbetta
- first_name: Olivier
full_name: Dauchot, Olivier
last_name: Dauchot
- first_name: Marjolein
full_name: Dijkstra, Marjolein
last_name: Dijkstra
- first_name: William M.
full_name: Durham, William M.
last_name: Durham
- first_name: Audrey
full_name: Dussutour, Audrey
last_name: Dussutour
- first_name: Simon
full_name: Garnier, Simon
last_name: Garnier
- first_name: Hanneke
full_name: Gelderblom, Hanneke
last_name: Gelderblom
- first_name: Ramin
full_name: Golestanian, Ramin
last_name: Golestanian
- first_name: Lucio
full_name: Isa, Lucio
last_name: Isa
- first_name: Gijsje H.
full_name: Koenderink, Gijsje H.
last_name: Koenderink
- first_name: Hartmut
full_name: Löwen, Hartmut
last_name: Löwen
- first_name: Ralf
full_name: Metzler, Ralf
last_name: Metzler
- first_name: Marco
full_name: Polin, Marco
last_name: Polin
- first_name: C. Patrick
full_name: Royall, C. Patrick
last_name: Royall
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Anupam
full_name: Sengupta, Anupam
last_name: Sengupta
- first_name: Cécile
full_name: Sykes, Cécile
last_name: Sykes
- first_name: Vito
full_name: Trianni, Vito
last_name: Trianni
- first_name: Idan
full_name: Tuval, Idan
last_name: Tuval
- first_name: Nicolas
full_name: Vogel, Nicolas
last_name: Vogel
- first_name: Julia M.
full_name: Yeomans, Julia M.
last_name: Yeomans
- first_name: Iker
full_name: Zuriguel, Iker
last_name: Zuriguel
- first_name: Alvaro
full_name: Marin, Alvaro
last_name: Marin
- first_name: Giorgio
full_name: Volpe, Giorgio
last_name: Volpe
citation:
ama: Araújo NAM, Janssen LMC, Barois T, et al. Steering self-organisation through
confinement. Soft Matter. 2023;19:1695-1704. doi:10.1039/d2sm01562e
apa: Araújo, N. A. M., Janssen, L. M. C., Barois, T., Boffetta, G., Cohen, I., Corbetta,
A., … Volpe, G. (2023). Steering self-organisation through confinement. Soft
Matter. Royal Society of Chemistry. https://doi.org/10.1039/d2sm01562e
chicago: Araújo, Nuno A.M., Liesbeth M.C. Janssen, Thomas Barois, Guido Boffetta,
Itai Cohen, Alessandro Corbetta, Olivier Dauchot, et al. “Steering Self-Organisation
through Confinement.” Soft Matter. Royal Society of Chemistry, 2023. https://doi.org/10.1039/d2sm01562e.
ieee: N. A. M. Araújo et al., “Steering self-organisation through confinement,”
Soft Matter, vol. 19. Royal Society of Chemistry, pp. 1695–1704, 2023.
ista: Araújo NAM, Janssen LMC, Barois T, Boffetta G, Cohen I, Corbetta A, Dauchot
O, Dijkstra M, Durham WM, Dussutour A, Garnier S, Gelderblom H, Golestanian R,
Isa L, Koenderink GH, Löwen H, Metzler R, Polin M, Royall CP, Šarić A, Sengupta
A, Sykes C, Trianni V, Tuval I, Vogel N, Yeomans JM, Zuriguel I, Marin A, Volpe
G. 2023. Steering self-organisation through confinement. Soft Matter. 19, 1695–1704.
mla: Araújo, Nuno A. M., et al. “Steering Self-Organisation through Confinement.”
Soft Matter, vol. 19, Royal Society of Chemistry, 2023, pp. 1695–704, doi:10.1039/d2sm01562e.
short: N.A.M. Araújo, L.M.C. Janssen, T. Barois, G. Boffetta, I. Cohen, A. Corbetta,
O. Dauchot, M. Dijkstra, W.M. Durham, A. Dussutour, S. Garnier, H. Gelderblom,
R. Golestanian, L. Isa, G.H. Koenderink, H. Löwen, R. Metzler, M. Polin, C.P.
Royall, A. Šarić, A. Sengupta, C. Sykes, V. Trianni, I. Tuval, N. Vogel, J.M.
Yeomans, I. Zuriguel, A. Marin, G. Volpe, Soft Matter 19 (2023) 1695–1704.
date_created: 2023-03-05T23:01:06Z
date_published: 2023-02-06T00:00:00Z
date_updated: 2025-04-23T08:48:51Z
day: '06'
ddc:
- '540'
department:
- _id: AnSa
doi: 10.1039/d2sm01562e
ec_funded: 1
external_id:
arxiv:
- '2204.10059'
isi:
- '000940388100001'
pmid:
- '36779972'
file:
- access_level: open_access
checksum: af95aa18b9b01e32fb8f13477c0e2687
content_type: application/pdf
creator: cchlebak
date_created: 2023-03-07T09:19:41Z
date_updated: 2023-03-07T09:19:41Z
file_id: '12711'
file_name: 2023_SoftMatter_Araujo.pdf
file_size: 3581939
relation: main_file
success: 1
file_date_updated: 2023-03-07T09:19:41Z
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1695-1704
pmid: 1
project:
- _id: eba2549b-77a9-11ec-83b8-a81e493eae4e
call_identifier: H2020
grant_number: '802960'
name: 'Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines'
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Steering self-organisation through confinement
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2023'
...
---
_id: '10204'
abstract:
- lang: eng
text: Two common representations of close packings of identical spheres consisting
of hexagonal layers, called Barlow stackings, appear abundantly in minerals and
metals. These motifs, however, occupy an identical portion of space and bear identical
first-order topological signatures as measured by persistent homology. Here we
present a novel method based on k-fold covers that unambiguously distinguishes
between these patterns. Moreover, our approach provides topological evidence that
the FCC motif is the more stable of the two in the context of evolving experimental
sphere packings during the transition from disordered to an ordered state. We
conclude that our approach can be generalised to distinguish between various Barlow
stackings manifested in minerals and metals.
acknowledgement: MS acknowledges the support by Australian Research Council funding
through the ARC Training Centre for M3D Innovation (IC180100008). MS thanks M. Hanifpour
and N. Francois for their input and valuable discussions. This project has received
funding from the European Research Council (ERC) under the European Union's Horizon
2020 research and innovation programme, grant no. 788183 and from the Wittgenstein
Prize, Austrian Science Fund (FWF), grant no. Z 342-N31.
article_processing_charge: No
article_type: original
author:
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
orcid: 0000-0002-8882-5116
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Mohammad
full_name: Saadatfar, Mohammad
last_name: Saadatfar
citation:
ama: Osang GF, Edelsbrunner H, Saadatfar M. Topological signatures and stability
of hexagonal close packing and Barlow stackings. Soft Matter. 2021;17(40):9107-9115.
doi:10.1039/d1sm00774b
apa: Osang, G. F., Edelsbrunner, H., & Saadatfar, M. (2021). Topological signatures
and stability of hexagonal close packing and Barlow stackings. Soft Matter.
Royal Society of Chemistry . https://doi.org/10.1039/d1sm00774b
chicago: Osang, Georg F, Herbert Edelsbrunner, and Mohammad Saadatfar. “Topological
Signatures and Stability of Hexagonal Close Packing and Barlow Stackings.” Soft
Matter. Royal Society of Chemistry , 2021. https://doi.org/10.1039/d1sm00774b.
ieee: G. F. Osang, H. Edelsbrunner, and M. Saadatfar, “Topological signatures and
stability of hexagonal close packing and Barlow stackings,” Soft Matter,
vol. 17, no. 40. Royal Society of Chemistry , pp. 9107–9115, 2021.
ista: Osang GF, Edelsbrunner H, Saadatfar M. 2021. Topological signatures and stability
of hexagonal close packing and Barlow stackings. Soft Matter. 17(40), 9107–9115.
mla: Osang, Georg F., et al. “Topological Signatures and Stability of Hexagonal
Close Packing and Barlow Stackings.” Soft Matter, vol. 17, no. 40, Royal
Society of Chemistry , 2021, pp. 9107–15, doi:10.1039/d1sm00774b.
short: G.F. Osang, H. Edelsbrunner, M. Saadatfar, Soft Matter 17 (2021) 9107–9115.
date_created: 2021-10-31T23:01:30Z
date_published: 2021-10-20T00:00:00Z
date_updated: 2025-04-15T07:16:52Z
day: '20'
ddc:
- '540'
department:
- _id: HeEd
doi: 10.1039/d1sm00774b
ec_funded: 1
external_id:
isi:
- '000700090000001'
pmid:
- '34569592'
file:
- access_level: open_access
checksum: b4da0c420530295e61b153960f6cb350
content_type: application/pdf
creator: dernst
date_created: 2023-10-03T09:21:42Z
date_updated: 2023-10-03T09:21:42Z
file_id: '14385'
file_name: 2021_SoftMatter_acceptedversion_Osang.pdf
file_size: 4678788
relation: main_file
success: 1
file_date_updated: 2023-10-03T09:21:42Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '40'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 9107-9115
pmid: 1
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 268116B8-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00342
name: Mathematics, Computer Science
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Topological signatures and stability of hexagonal close packing and Barlow
stackings
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2021'
...
---
OA_place: publisher
OA_type: hybrid
_id: '10339'
abstract:
- lang: eng
text: We study the effects of osmotic shocks on lipid vesicles via coarse-grained
molecular dynamics simulations by explicitly considering the solute in the system.
We find that depending on their nature (hypo- or hypertonic) such shocks can lead
to bursting events or engulfing of external material into inner compartments,
among other morphology transformations. We characterize the dynamics of these
processes and observe a separation of time scales between the osmotic shock absorption
and the shape relaxation. Our work consequently provides an insight into the dynamics
of compartmentalization in vesicular systems as a result of osmotic shocks, which
can be of interest in the context of early proto-cell development and proto-cell
compartmentalisation.
acknowledgement: We acknowledge support from the Royal Society (C. V. C. and A. Sˇ.),
the Medical Research Council (C. V. C. and A. Sˇ.), and the European Research Council
(Starting grant ‘‘NEPA’’ 802960 to A. Sˇ.). We thank Johannes Krausser and Ivan
Palaia for fruitful discussions.
article_processing_charge: No
article_type: original
author:
- first_name: Christian
full_name: Vanhille-Campos, Christian
last_name: Vanhille-Campos
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
citation:
ama: Vanhille-Campos C, Šarić A. Modelling the dynamics of vesicle reshaping and
scission under osmotic shocks. Soft Matter. 2021;17(14):3798-3806. doi:10.1039/d0sm02012e
apa: Vanhille-Campos, C., & Šarić, A. (2021). Modelling the dynamics of vesicle
reshaping and scission under osmotic shocks. Soft Matter. Royal Society
of Chemistry. https://doi.org/10.1039/d0sm02012e
chicago: Vanhille-Campos, Christian, and Anđela Šarić. “Modelling the Dynamics of
Vesicle Reshaping and Scission under Osmotic Shocks.” Soft Matter. Royal
Society of Chemistry, 2021. https://doi.org/10.1039/d0sm02012e.
ieee: C. Vanhille-Campos and A. Šarić, “Modelling the dynamics of vesicle reshaping
and scission under osmotic shocks,” Soft Matter, vol. 17, no. 14. Royal
Society of Chemistry, pp. 3798–3806, 2021.
ista: Vanhille-Campos C, Šarić A. 2021. Modelling the dynamics of vesicle reshaping
and scission under osmotic shocks. Soft Matter. 17(14), 3798–3806.
mla: Vanhille-Campos, Christian, and Anđela Šarić. “Modelling the Dynamics of Vesicle
Reshaping and Scission under Osmotic Shocks.” Soft Matter, vol. 17, no.
14, Royal Society of Chemistry, 2021, pp. 3798–806, doi:10.1039/d0sm02012e.
short: C. Vanhille-Campos, A. Šarić, Soft Matter 17 (2021) 3798–3806.
date_created: 2021-11-25T16:06:42Z
date_published: 2021-02-16T00:00:00Z
date_updated: 2024-10-14T14:20:59Z
day: '16'
doi: 10.1039/d0sm02012e
extern: '1'
external_id:
pmid:
- '33629089'
intvolume: ' 17'
issue: '14'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/3.0/
main_file_link:
- open_access: '1'
url: https://pubs.rsc.org/en/content/articlehtml/2021/sm/d0sm02012e
month: '02'
oa: 1
oa_version: Published Version
page: 3798-3806
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
related_material:
link:
- relation: earlier_version
url: https://www.biorxiv.org/content/10.1101/2020.11.16.384602v2
scopus_import: '1'
status: public
title: Modelling the dynamics of vesicle reshaping and scission under osmotic shocks
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/3.0/legalcode
name: Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)
short: CC BY-NC (3.0)
type: journal_article
user_id: 0043cee0-e5fc-11ee-9736-f83bc23afbf0
volume: 17
year: '2021'
...
---
OA_place: publisher
OA_type: hybrid
_id: '10341'
abstract:
- lang: eng
text: Tracing the motion of macromolecules, viruses, and nanoparticles adsorbed
onto cell membranes is currently the most direct way of probing the complex dynamic
interactions behind vital biological processes, including cell signalling, trafficking,
and viral infection. The resulting trajectories are usually consistent with some
type of anomalous diffusion, but the molecular origins behind the observed anomalous
behaviour are usually not obvious. Here we use coarse-grained molecular dynamics
simulations to help identify the physical mechanisms that can give rise to experimentally
observed trajectories of nanoscopic objects moving on biological membranes. We
find that diffusion on membranes of high fluidities typically results in normal
diffusion of the adsorbed nanoparticle, irrespective of the concentration of receptors,
receptor clustering, or multivalent interactions between the particle and membrane
receptors. Gel-like membranes on the other hand result in anomalous diffusion
of the particle, which becomes more pronounced at higher receptor concentrations.
This anomalous diffusion is characterised by local particle trapping in the regions
of high receptor concentrations and fast hopping between such regions. The normal
diffusion is recovered in the limit where the gel membrane is saturated with receptors.
We conclude that hindered receptor diffusivity can be a common reason behind the
observed anomalous diffusion of viruses, vesicles, and nanoparticles adsorbed
on cell and model membranes. Our results enable direct comparison with experiments
and offer a new route for interpreting motility experiments on cell membranes.
acknowledgement: We thank Jessica McQuade for her input at the start of the project.
We acknowledge support from the ERASMUS Placement Programme (V. E. D.), the UCL
Institute for the Physics of Living Systems (V. E. D. and A. Š.), the UCL Global
Engagement Fund (L. M. C. J.), and the Royal Society (A. Š.).
article_processing_charge: No
article_type: original
author:
- first_name: V. E.
full_name: Debets, V. E.
last_name: Debets
- first_name: L. M. C.
full_name: Janssen, L. M. C.
last_name: Janssen
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
citation:
ama: Debets VE, Janssen LMC, Šarić A. Characterising the diffusion of biological
nanoparticles on fluid and cross-linked membranes. Soft Matter. 2020;16(47):10628-10639.
doi:10.1039/d0sm00712a
apa: Debets, V. E., Janssen, L. M. C., & Šarić, A. (2020). Characterising the
diffusion of biological nanoparticles on fluid and cross-linked membranes. Soft
Matter. Royal Society of Chemistry. https://doi.org/10.1039/d0sm00712a
chicago: Debets, V. E., L. M. C. Janssen, and Anđela Šarić. “Characterising the
Diffusion of Biological Nanoparticles on Fluid and Cross-Linked Membranes.” Soft
Matter. Royal Society of Chemistry, 2020. https://doi.org/10.1039/d0sm00712a.
ieee: V. E. Debets, L. M. C. Janssen, and A. Šarić, “Characterising the diffusion
of biological nanoparticles on fluid and cross-linked membranes,” Soft Matter,
vol. 16, no. 47. Royal Society of Chemistry, pp. 10628–10639, 2020.
ista: Debets VE, Janssen LMC, Šarić A. 2020. Characterising the diffusion of biological
nanoparticles on fluid and cross-linked membranes. Soft Matter. 16(47), 10628–10639.
mla: Debets, V. E., et al. “Characterising the Diffusion of Biological Nanoparticles
on Fluid and Cross-Linked Membranes.” Soft Matter, vol. 16, no. 47, Royal
Society of Chemistry, 2020, pp. 10628–39, doi:10.1039/d0sm00712a.
short: V.E. Debets, L.M.C. Janssen, A. Šarić, Soft Matter 16 (2020) 10628–10639.
date_created: 2021-11-26T06:29:41Z
date_published: 2020-10-06T00:00:00Z
date_updated: 2024-10-16T12:53:17Z
day: '06'
doi: 10.1039/d0sm00712a
extern: '1'
external_id:
pmid:
- '33084724'
intvolume: ' 16'
issue: '47'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/2020.05.01.071761v1
month: '10'
oa: 1
oa_version: Published Version
page: 10628-10639
pmid: 1
publication: Soft Matter
publication_identifier:
issn:
- 1744-683X
- 1744-6848
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Characterising the diffusion of biological nanoparticles on fluid and cross-linked
membranes
type: journal_article
user_id: 0043cee0-e5fc-11ee-9736-f83bc23afbf0
volume: 16
year: '2020'
...
---
_id: '9054'
abstract:
- lang: eng
text: 'The fundamental and practical importance of particle stabilization has motivated
various characterization methods for studying polymer brushes on particle surfaces.
In this work, we show how one can perform sensitive measurements of neutral polymer
coating on colloidal particles using a commercial zetameter and salt solutions.
By systematically varying the Debye length, we study the mobility of the polymer-coated
particles in an applied electric field and show that the electrophoretic mobility
of polymer-coated particles normalized by the mobility of non-coated particles
is entirely controlled by the polymer brush and independent of the native surface
charge, here controlled with pH, or the surface–ion interaction. Our result is
rationalized with a simple hydrodynamic model, allowing for the estimation of
characteristics of the polymer coating: the brush length L, and the Brinkman length
ξ, determined by its resistance to flows. We demonstrate that the Debye layer
provides a convenient and faithful probe to the characterization of polymer coatings
on particles. Because the method simply relies on a conventional zetameter, it
is widely accessible and offers a practical tool to rapidly probe neutral polymer
brushes, an asset in the development and utilization of polymer-coated colloidal
particles.'
article_processing_charge: No
article_type: original
author:
- first_name: Mena
full_name: Youssef, Mena
last_name: Youssef
- first_name: Alexandre
full_name: Morin, Alexandre
last_name: Morin
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Youssef M, Morin A, Aubret A, Sacanna S, Palacci JA. Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt. Soft Matter. 2020;16(17):4274-4282. doi:10.1039/c9sm01850f
apa: Youssef, M., Morin, A., Aubret, A., Sacanna, S., & Palacci, J. A. (2020).
Rapid characterization of neutral polymer brush with a conventional zetameter
and a variable pinch of salt. Soft Matter. Royal Society of Chemistry .
https://doi.org/10.1039/c9sm01850f
chicago: Youssef, Mena, Alexandre Morin, Antoine Aubret, Stefano Sacanna, and Jérémie
A Palacci. “Rapid Characterization of Neutral Polymer Brush with a Conventional
Zetameter and a Variable Pinch of Salt.” Soft Matter. Royal Society of
Chemistry , 2020. https://doi.org/10.1039/c9sm01850f.
ieee: M. Youssef, A. Morin, A. Aubret, S. Sacanna, and J. A. Palacci, “Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt,” Soft Matter, vol. 16, no. 17. Royal Society of Chemistry , pp. 4274–4282,
2020.
ista: Youssef M, Morin A, Aubret A, Sacanna S, Palacci JA. 2020. Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt. Soft Matter. 16(17), 4274–4282.
mla: Youssef, Mena, et al. “Rapid Characterization of Neutral Polymer Brush with
a Conventional Zetameter and a Variable Pinch of Salt.” Soft Matter, vol.
16, no. 17, Royal Society of Chemistry , 2020, pp. 4274–82, doi:10.1039/c9sm01850f.
short: M. Youssef, A. Morin, A. Aubret, S. Sacanna, J.A. Palacci, Soft Matter 16
(2020) 4274–4282.
date_created: 2021-02-01T13:45:11Z
date_published: 2020-05-07T00:00:00Z
date_updated: 2023-02-23T13:47:45Z
day: '07'
doi: 10.1039/c9sm01850f
extern: '1'
external_id:
pmid:
- '32307507'
intvolume: ' 16'
issue: '17'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
month: '05'
oa_version: None
page: 4274-4282
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rapid characterization of neutral polymer brush with a conventional zetameter
and a variable pinch of salt
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 16
year: '2020'
...
---
_id: '5817'
abstract:
- lang: eng
text: We theoretically study the shapes of lipid vesicles confined to a spherical
cavity, elaborating a framework based on the so-called limiting shapes constructed
from geometrically simple structural elements such as double-membrane walls and
edges. Partly inspired by numerical results, the proposed non-compartmentalized
and compartmentalized limiting shapes are arranged in the bilayer-couple phase
diagram which is then compared to its free-vesicle counterpart. We also compute
the area-difference-elasticity phase diagram of the limiting shapes and we use
it to interpret shape transitions experimentally observed in vesicles confined
within another vesicle. The limiting-shape framework may be generalized to theoretically
investigate the structure of certain cell organelles such as the mitochondrion.
article_processing_charge: No
article_type: original
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: A.
full_name: Sakashita, A.
last_name: Sakashita
- first_name: H.
full_name: Noguchi, H.
last_name: Noguchi
- first_name: P.
full_name: Ziherl, P.
last_name: Ziherl
citation:
ama: Kavcic B, Sakashita A, Noguchi H, Ziherl P. Limiting shapes of confined lipid
vesicles. Soft Matter. 2019;15(4):602-614. doi:10.1039/c8sm01956h
apa: Kavcic, B., Sakashita, A., Noguchi, H., & Ziherl, P. (2019). Limiting shapes
of confined lipid vesicles. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c8sm01956h
chicago: Kavcic, Bor, A. Sakashita, H. Noguchi, and P. Ziherl. “Limiting Shapes
of Confined Lipid Vesicles.” Soft Matter. Royal Society of Chemistry, 2019.
https://doi.org/10.1039/c8sm01956h.
ieee: B. Kavcic, A. Sakashita, H. Noguchi, and P. Ziherl, “Limiting shapes of confined
lipid vesicles,” Soft Matter, vol. 15, no. 4. Royal Society of Chemistry,
pp. 602–614, 2019.
ista: Kavcic B, Sakashita A, Noguchi H, Ziherl P. 2019. Limiting shapes of confined
lipid vesicles. Soft Matter. 15(4), 602–614.
mla: Kavcic, Bor, et al. “Limiting Shapes of Confined Lipid Vesicles.” Soft Matter,
vol. 15, no. 4, Royal Society of Chemistry, 2019, pp. 602–14, doi:10.1039/c8sm01956h.
short: B. Kavcic, A. Sakashita, H. Noguchi, P. Ziherl, Soft Matter 15 (2019) 602–614.
corr_author: '1'
date_created: 2019-01-11T07:37:47Z
date_published: 2019-01-10T00:00:00Z
date_updated: 2024-10-09T20:58:29Z
day: '10'
ddc:
- '530'
department:
- _id: GaTk
doi: 10.1039/c8sm01956h
external_id:
isi:
- '000457329700003'
pmid:
- '30629082'
file:
- access_level: open_access
checksum: 614c337d6424ccd3d48d1b1f9513510d
content_type: application/pdf
creator: bkavcic
date_created: 2020-10-09T11:00:05Z
date_updated: 2020-10-09T11:00:05Z
file_id: '8641'
file_name: lmt_sftmtr_V8.pdf
file_size: 5370762
relation: main_file
success: 1
file_date_updated: 2020-10-09T11:00:05Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
issue: '4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/3.0/
month: '01'
oa: 1
oa_version: Submitted Version
page: 602-614
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Limiting shapes of confined lipid vesicles
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/3.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported (CC BY-NC-ND
3.0)
short: CC BY-NC-ND (3.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 15
year: '2019'
...
---
_id: '6763'
abstract:
- lang: eng
text: "When grape-sized aqueous dimers are irradiated in a microwave oven, an intense
electromagnetic hotspot forms at their point of contact, often igniting a plasma.
Here we show that this irradiation can result in the injection of mechanical energy.
By examining irradiated hydrogel dimers through high-speed imaging, we find that
they repeatedly bounce off of each other while irradiated. We determine that an
average of 1 lJ of mechanical energy is injected into the pair during each collision.
Furthermore, a characteristic high-pitched audio signal is found to accompany
each collision.\r\nWe show that both the audio signal and the energy injection
arise via an interplay between vaporization and elastic deformations in the region
of contact, the so-called ‘elastic Liedenfrost effect’. Our results establish
a novel, non-contact method of injecting mechanical energy into soft matter systems,
suggesting application in fields such as soft robotics."
article_processing_charge: No
article_type: original
author:
- first_name: Hamza K.
full_name: Khattak, Hamza K.
last_name: Khattak
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
- first_name: Aaron D.
full_name: Slepkov, Aaron D.
last_name: Slepkov
citation:
ama: Khattak HK, Waitukaitis SR, Slepkov AD. Microwave induced mechanical activation
of hydrogel dimers. Soft Matter. 2019;15(29):5804-5809. doi:10.1039/c9sm00756c
apa: Khattak, H. K., Waitukaitis, S. R., & Slepkov, A. D. (2019). Microwave
induced mechanical activation of hydrogel dimers. Soft Matter. Royal Society
of Chemistry. https://doi.org/10.1039/c9sm00756c
chicago: Khattak, Hamza K., Scott R Waitukaitis, and Aaron D. Slepkov. “Microwave
Induced Mechanical Activation of Hydrogel Dimers.” Soft Matter. Royal Society
of Chemistry, 2019. https://doi.org/10.1039/c9sm00756c.
ieee: H. K. Khattak, S. R. Waitukaitis, and A. D. Slepkov, “Microwave induced mechanical
activation of hydrogel dimers,” Soft Matter, vol. 15, no. 29. Royal Society
of Chemistry, pp. 5804–5809, 2019.
ista: Khattak HK, Waitukaitis SR, Slepkov AD. 2019. Microwave induced mechanical
activation of hydrogel dimers. Soft Matter. 15(29), 5804–5809.
mla: Khattak, Hamza K., et al. “Microwave Induced Mechanical Activation of Hydrogel
Dimers.” Soft Matter, vol. 15, no. 29, Royal Society of Chemistry, 2019,
pp. 5804–09, doi:10.1039/c9sm00756c.
short: H.K. Khattak, S.R. Waitukaitis, A.D. Slepkov, Soft Matter 15 (2019) 5804–5809.
date_created: 2019-08-04T21:59:21Z
date_published: 2019-07-15T00:00:00Z
date_updated: 2025-07-10T11:53:49Z
day: '15'
department:
- _id: ScWa
doi: 10.1039/c9sm00756c
external_id:
isi:
- '000476909200002'
pmid:
- '31305853'
intvolume: ' 15'
isi: 1
issue: '29'
language:
- iso: eng
month: '07'
oa_version: None
page: 5804-5809
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Microwave induced mechanical activation of hydrogel dimers
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2019'
...
---
_id: '9053'
abstract:
- lang: eng
text: The development of strategies to assemble microscopic machines from dissipative
building blocks are essential on the route to novel active materials. We recently
demonstrated the hierarchical self-assembly of phoretic microswimmers into self-spinning
microgears and their synchronization by diffusiophoretic interactions [Aubret
et al., Nat. Phys., 2018]. In this paper, we adopt a pedagogical approach and
expose our strategy to control self-assembly and build machines using phoretic
phenomena. We notably introduce Highly Inclined Laminated Optical sheets microscopy
(HILO) to image and characterize anisotropic and dynamic diffusiophoretic interactions,
which cannot be performed by conventional fluorescence microscopy. The dynamics
of a (haematite) photocatalytic material immersed in (hydrogen peroxide) fuel
under various illumination patterns is first described and quantitatively rationalized
by a model of diffusiophoresis, the migration of a colloidal particle in a concentration
gradient. It is further exploited to design phototactic microswimmers that direct
towards the high intensity of light, as a result of the reorientation of the haematite
in a light gradient. We finally show the assembly of self-spinning microgears
from colloidal microswimmers and carefully characterize the interactions using
HILO techniques. The results are compared with analytical and numerical predictions
and agree quantitatively, stressing the important role played by concentration
gradients induced by chemical activity to control and design interactions. Because
the approach described hereby is generic, this works paves the way for the rational
design of machines by controlling phoretic phenomena.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Aubret A, Palacci JA. Diffusiophoretic design of self-spinning microgears from
colloidal microswimmers. Soft Matter. 2018;14(47):9577-9588. doi:10.1039/c8sm01760c
apa: Aubret, A., & Palacci, J. A. (2018). Diffusiophoretic design of self-spinning
microgears from colloidal microswimmers. Soft Matter. Royal Society of
Chemistry . https://doi.org/10.1039/c8sm01760c
chicago: Aubret, Antoine, and Jérémie A Palacci. “Diffusiophoretic Design of Self-Spinning
Microgears from Colloidal Microswimmers.” Soft Matter. Royal Society of
Chemistry , 2018. https://doi.org/10.1039/c8sm01760c.
ieee: A. Aubret and J. A. Palacci, “Diffusiophoretic design of self-spinning microgears
from colloidal microswimmers,” Soft Matter, vol. 14, no. 47. Royal Society
of Chemistry , pp. 9577–9588, 2018.
ista: Aubret A, Palacci JA. 2018. Diffusiophoretic design of self-spinning microgears
from colloidal microswimmers. Soft Matter. 14(47), 9577–9588.
mla: Aubret, Antoine, and Jérémie A. Palacci. “Diffusiophoretic Design of Self-Spinning
Microgears from Colloidal Microswimmers.” Soft Matter, vol. 14, no. 47,
Royal Society of Chemistry , 2018, pp. 9577–88, doi:10.1039/c8sm01760c.
short: A. Aubret, J.A. Palacci, Soft Matter 14 (2018) 9577–9588.
date_created: 2021-02-01T13:44:41Z
date_published: 2018-12-21T00:00:00Z
date_updated: 2023-02-23T13:47:43Z
day: '21'
doi: 10.1039/c8sm01760c
extern: '1'
external_id:
arxiv:
- '1909.11121'
pmid:
- '30456407'
intvolume: ' 14'
issue: '47'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1909.11121
month: '12'
oa: 1
oa_version: Preprint
page: 9577-9588
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diffusiophoretic design of self-spinning microgears from colloidal microswimmers
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 14
year: '2018'
...
---
_id: '10375'
abstract:
- lang: eng
text: 'Cellular membranes exhibit a large variety of shapes, strongly coupled to
their function. Many biological processes involve dynamic reshaping of membranes,
usually mediated by proteins. This interaction works both ways: while proteins
influence the membrane shape, the membrane shape affects the interactions between
the proteins. To study these membrane-mediated interactions on closed and anisotropically
curved membranes, we use colloids adhered to ellipsoidal membrane vesicles as
a model system. We find that two particles on a closed system always attract each
other, and tend to align with the direction of largest curvature. Multiple particles
form arcs, or, at large enough numbers, a complete ring surrounding the vesicle
in its equatorial plane. The resulting vesicle shape resembles a snowman. Our
results indicate that these physical interactions on membranes with anisotropic
shapes can be exploited by cells to drive macromolecules to preferred regions
of cellular or intracellular membranes, and utilized to initiate dynamic processes
such as cell division. The same principle could be used to find the midplane of
an artificial vesicle, as a first step towards dividing it into two equal parts.'
acknowledgement: This work was supported by the Netherlands Organisation for Scientific
Research (NWO/OCW), as part of the Frontiers of Nanoscience program.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Afshin
full_name: Vahid, Afshin
last_name: Vahid
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Timon
full_name: Idema, Timon
last_name: Idema
citation:
ama: Vahid A, Šarić A, Idema T. Curvature variation controls particle aggregation
on fluid vesicles. Soft Matter. 2017;13(28):4924-4930. doi:10.1039/c7sm00433h
apa: Vahid, A., Šarić, A., & Idema, T. (2017). Curvature variation controls
particle aggregation on fluid vesicles. Soft Matter. Royal Society of Chemistry.
https://doi.org/10.1039/c7sm00433h
chicago: Vahid, Afshin, Anđela Šarić, and Timon Idema. “Curvature Variation Controls
Particle Aggregation on Fluid Vesicles.” Soft Matter. Royal Society of
Chemistry, 2017. https://doi.org/10.1039/c7sm00433h.
ieee: A. Vahid, A. Šarić, and T. Idema, “Curvature variation controls particle aggregation
on fluid vesicles,” Soft Matter, vol. 13, no. 28. Royal Society of Chemistry,
pp. 4924–4930, 2017.
ista: Vahid A, Šarić A, Idema T. 2017. Curvature variation controls particle aggregation
on fluid vesicles. Soft Matter. 13(28), 4924–4930.
mla: Vahid, Afshin, et al. “Curvature Variation Controls Particle Aggregation on
Fluid Vesicles.” Soft Matter, vol. 13, no. 28, Royal Society of Chemistry,
2017, pp. 4924–30, doi:10.1039/c7sm00433h.
short: A. Vahid, A. Šarić, T. Idema, Soft Matter 13 (2017) 4924–4930.
date_created: 2021-11-29T10:00:39Z
date_published: 2017-06-15T00:00:00Z
date_updated: 2021-11-29T10:33:36Z
day: '15'
doi: 10.1039/c7sm00433h
extern: '1'
external_id:
arxiv:
- '1703.00776'
pmid:
- '28677712'
intvolume: ' 13'
issue: '28'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
license: https://creativecommons.org/licenses/by/3.0/
main_file_link:
- open_access: '1'
url: https://pubs.rsc.org/en/content/articlelanding/2017/SM/C7SM00433H
month: '06'
oa: 1
oa_version: Published Version
page: 4924-4930
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Curvature variation controls particle aggregation on fluid vesicles
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/3.0/legalcode
name: Creative Commons Attribution 3.0 Unported (CC BY 3.0)
short: CC BY (3.0)
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 13
year: '2017'
...
---
_id: '10381'
abstract:
- lang: eng
text: We study phase behaviour of lipid-bilayer vesicles functionalised by ligand–receptor
complexes made of synthetic DNA by introducing a modelling framework and a dedicated
experimental platform. In particular, we perform Monte Carlo simulations that
combine a coarse grained description of the lipid bilayer with state of art analytical
models for multivalent ligand–receptor interactions. Using density of state calculations,
we derive the partition function in pairs of vesicles and compute the number of
ligand–receptor bonds as a function of temperature. Numerical results are compared
to microscopy and fluorimetry experiments on large unilamellar vesicles decorated
by DNA linkers carrying complementary overhangs. We find that vesicle aggregation
is suppressed when the total number of linkers falls below a threshold value.
Within the model proposed here, this is due to the higher configurational costs
required to form inter-vesicle bridges as compared to intra-vesicle loops, which
are in turn related to membrane deformability. Our findings and our numerical/experimental
methodologies are applicable to the rational design of liposomes used as functional
materials and drug delivery applications, as well as to study inter-membrane interactions
in living systems, such as cell adhesion.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Stephan Jan
full_name: Bachmann, Stephan Jan
last_name: Bachmann
- first_name: Jurij
full_name: Kotar, Jurij
last_name: Kotar
- first_name: Lucia
full_name: Parolini, Lucia
last_name: Parolini
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Pietro
full_name: Cicuta, Pietro
last_name: Cicuta
- first_name: Lorenzo
full_name: Di Michele, Lorenzo
last_name: Di Michele
- first_name: Bortolo Matteo
full_name: Mognetti, Bortolo Matteo
last_name: Mognetti
citation:
ama: Bachmann SJ, Kotar J, Parolini L, et al. Melting transition in lipid vesicles
functionalised by mobile DNA linkers. Soft Matter. 2016;12(37):7804-7817.
doi:10.1039/c6sm01515h
apa: Bachmann, S. J., Kotar, J., Parolini, L., Šarić, A., Cicuta, P., Di Michele,
L., & Mognetti, B. M. (2016). Melting transition in lipid vesicles functionalised
by mobile DNA linkers. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c6sm01515h
chicago: Bachmann, Stephan Jan, Jurij Kotar, Lucia Parolini, Anđela Šarić, Pietro
Cicuta, Lorenzo Di Michele, and Bortolo Matteo Mognetti. “Melting Transition in
Lipid Vesicles Functionalised by Mobile DNA Linkers.” Soft Matter. Royal
Society of Chemistry, 2016. https://doi.org/10.1039/c6sm01515h.
ieee: S. J. Bachmann et al., “Melting transition in lipid vesicles functionalised
by mobile DNA linkers,” Soft Matter, vol. 12, no. 37. Royal Society of
Chemistry, pp. 7804–7817, 2016.
ista: Bachmann SJ, Kotar J, Parolini L, Šarić A, Cicuta P, Di Michele L, Mognetti
BM. 2016. Melting transition in lipid vesicles functionalised by mobile DNA linkers.
Soft Matter. 12(37), 7804–7817.
mla: Bachmann, Stephan Jan, et al. “Melting Transition in Lipid Vesicles Functionalised
by Mobile DNA Linkers.” Soft Matter, vol. 12, no. 37, Royal Society of
Chemistry, 2016, pp. 7804–17, doi:10.1039/c6sm01515h.
short: S.J. Bachmann, J. Kotar, L. Parolini, A. Šarić, P. Cicuta, L. Di Michele,
B.M. Mognetti, Soft Matter 12 (2016) 7804–7817.
date_created: 2021-11-29T11:09:55Z
date_published: 2016-08-19T00:00:00Z
date_updated: 2021-11-29T13:09:00Z
day: '19'
doi: 10.1039/c6sm01515h
extern: '1'
external_id:
arxiv:
- '1608.05788'
pmid:
- '27722701'
intvolume: ' 12'
issue: '37'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1608.05788
month: '08'
oa: 1
oa_version: Preprint
page: 7804-7817
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Melting transition in lipid vesicles functionalised by mobile DNA linkers
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 12
year: '2016'
...
---
_id: '7764'
abstract:
- lang: eng
text: States of self stress, organizations of internal forces in many-body systems
that are in equilibrium with an absence of external forces, can be thought of
as the constitutive building blocks of the elastic response of a material. In
overconstrained disordered packings they have a natural mathematical correspondence
with the zero-energy vibrational modes in underconstrained systems. While substantial
attention in the literature has been paid to diverging length scales associated
with zero- and finite-energy vibrational modes in jammed systems, less is known
about the spatial structure of the states of self stress. In this work we define
a natural way in which a unique state of self stress can be associated with each
bond in a disordered spring network derived from a jammed packing, and then investigate
the spatial structure of these bond-localized states of self stress. This allows
for an understanding of how the elastic properties of a system would change upon
changing the strength or even existence of any bond in the system.
article_processing_charge: No
article_type: original
author:
- first_name: Daniel M.
full_name: Sussman, Daniel M.
last_name: Sussman
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Andrea J.
full_name: Liu, Andrea J.
last_name: Liu
citation:
ama: Sussman DM, Goodrich CP, Liu AJ. Spatial structure of states of self stress
in jammed systems. Soft Matter. 2016;12(17):3982-3990. doi:10.1039/c6sm00094k
apa: Sussman, D. M., Goodrich, C. P., & Liu, A. J. (2016). Spatial structure
of states of self stress in jammed systems. Soft Matter. Royal Society
of Chemistry. https://doi.org/10.1039/c6sm00094k
chicago: Sussman, Daniel M., Carl Peter Goodrich, and Andrea J. Liu. “Spatial Structure
of States of Self Stress in Jammed Systems.” Soft Matter. Royal Society
of Chemistry, 2016. https://doi.org/10.1039/c6sm00094k.
ieee: D. M. Sussman, C. P. Goodrich, and A. J. Liu, “Spatial structure of states
of self stress in jammed systems,” Soft Matter, vol. 12, no. 17. Royal
Society of Chemistry, pp. 3982–3990, 2016.
ista: Sussman DM, Goodrich CP, Liu AJ. 2016. Spatial structure of states of self
stress in jammed systems. Soft Matter. 12(17), 3982–3990.
mla: Sussman, Daniel M., et al. “Spatial Structure of States of Self Stress in Jammed
Systems.” Soft Matter, vol. 12, no. 17, Royal Society of Chemistry, 2016,
pp. 3982–90, doi:10.1039/c6sm00094k.
short: D.M. Sussman, C.P. Goodrich, A.J. Liu, Soft Matter 12 (2016) 3982–3990.
date_created: 2020-04-30T11:40:56Z
date_published: 2016-03-14T00:00:00Z
date_updated: 2021-01-12T08:15:22Z
day: '14'
doi: 10.1039/c6sm00094k
extern: '1'
intvolume: ' 12'
issue: '17'
language:
- iso: eng
month: '03'
oa_version: None
page: 3982-3990
publication: Soft Matter
publication_identifier:
issn:
- 1744-683X
- 1744-6848
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
related_material:
link:
- relation: other
url: https://doi.org/10.1039/c6sm02496c
status: public
title: Spatial structure of states of self stress in jammed systems
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2016'
...
---
_id: '9051'
abstract:
- lang: eng
text: 'Biological systems often involve the self-assembly of basic components into
complex and functioning structures. Artificial systems that mimic such processes
can provide a well-controlled setting to explore the principles involved and also
synthesize useful micromachines. Our experiments show that immotile, but active,
components self-assemble into two types of structure that exhibit the fundamental
forms of motility: translation and rotation. Specifically, micron-scale metallic
rods are designed to induce extensile surface flows in the presence of a chemical
fuel; these rods interact with each other and pair up to form either a swimmer
or a rotor. Such pairs can transition reversibly between these two configurations,
leading to kinetics reminiscent of bacterial run-and-tumble motion.'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Megan S.
full_name: Davies Wykes, Megan S.
last_name: Davies Wykes
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Takuji
full_name: Adachi, Takuji
last_name: Adachi
- first_name: Leif
full_name: Ristroph, Leif
last_name: Ristroph
- first_name: Xiao
full_name: Zhong, Xiao
last_name: Zhong
- first_name: Michael D.
full_name: Ward, Michael D.
last_name: Ward
- first_name: Jun
full_name: Zhang, Jun
last_name: Zhang
- first_name: Michael J.
full_name: Shelley, Michael J.
last_name: Shelley
citation:
ama: Davies Wykes MS, Palacci JA, Adachi T, et al. Dynamic self-assembly of microscale
rotors and swimmers. Soft Matter. 2016;12(20):4584-4589. doi:10.1039/c5sm03127c
apa: Davies Wykes, M. S., Palacci, J. A., Adachi, T., Ristroph, L., Zhong, X., Ward,
M. D., … Shelley, M. J. (2016). Dynamic self-assembly of microscale rotors and
swimmers. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c5sm03127c
chicago: Davies Wykes, Megan S., Jérémie A Palacci, Takuji Adachi, Leif Ristroph,
Xiao Zhong, Michael D. Ward, Jun Zhang, and Michael J. Shelley. “Dynamic Self-Assembly
of Microscale Rotors and Swimmers.” Soft Matter. Royal Society of Chemistry,
2016. https://doi.org/10.1039/c5sm03127c.
ieee: M. S. Davies Wykes et al., “Dynamic self-assembly of microscale rotors
and swimmers,” Soft Matter, vol. 12, no. 20. Royal Society of Chemistry,
pp. 4584–4589, 2016.
ista: Davies Wykes MS, Palacci JA, Adachi T, Ristroph L, Zhong X, Ward MD, Zhang
J, Shelley MJ. 2016. Dynamic self-assembly of microscale rotors and swimmers.
Soft Matter. 12(20), 4584–4589.
mla: Davies Wykes, Megan S., et al. “Dynamic Self-Assembly of Microscale Rotors
and Swimmers.” Soft Matter, vol. 12, no. 20, Royal Society of Chemistry,
2016, pp. 4584–89, doi:10.1039/c5sm03127c.
short: M.S. Davies Wykes, J.A. Palacci, T. Adachi, L. Ristroph, X. Zhong, M.D. Ward,
J. Zhang, M.J. Shelley, Soft Matter 12 (2016) 4584–4589.
date_created: 2021-02-01T13:44:00Z
date_published: 2016-05-28T00:00:00Z
date_updated: 2023-02-23T13:47:38Z
day: '28'
doi: 10.1039/c5sm03127c
extern: '1'
external_id:
arxiv:
- '1509.06330'
pmid:
- '27121100'
intvolume: ' 12'
issue: '20'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1509.06330
month: '05'
oa: 1
oa_version: Preprint
page: 4584-4589
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamic self-assembly of microscale rotors and swimmers
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 12
year: '2016'
...
---
_id: '9052'
abstract:
- lang: eng
text: We describe colloidal Janus particles with metallic and dielectric faces that
swim vigorously when illuminated by defocused optical tweezers without consuming
any chemical fuel. Rather than wandering randomly, these optically-activated colloidal
swimmers circulate back and forth through the beam of light, tracing out sinuous
rosette patterns. We propose a model for this mode of light-activated transport
that accounts for the observed behavior through a combination of self-thermophoresis
and optically-induced torque. In the deterministic limit, this model yields trajectories
that resemble rosette curves known as hypotrochoids.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Henrique
full_name: Moyses, Henrique
last_name: Moyses
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
- first_name: David G.
full_name: Grier, David G.
last_name: Grier
citation:
ama: Moyses H, Palacci JA, Sacanna S, Grier DG. Trochoidal trajectories of self-propelled
Janus particles in a diverging laser beam. Soft Matter. 2016;12(30):6357-6364.
doi:10.1039/c6sm01163b
apa: Moyses, H., Palacci, J. A., Sacanna, S., & Grier, D. G. (2016). Trochoidal
trajectories of self-propelled Janus particles in a diverging laser beam. Soft
Matter. Royal Society of Chemistry . https://doi.org/10.1039/c6sm01163b
chicago: Moyses, Henrique, Jérémie A Palacci, Stefano Sacanna, and David G. Grier.
“Trochoidal Trajectories of Self-Propelled Janus Particles in a Diverging Laser
Beam.” Soft Matter. Royal Society of Chemistry , 2016. https://doi.org/10.1039/c6sm01163b.
ieee: H. Moyses, J. A. Palacci, S. Sacanna, and D. G. Grier, “Trochoidal trajectories
of self-propelled Janus particles in a diverging laser beam,” Soft Matter,
vol. 12, no. 30. Royal Society of Chemistry , pp. 6357–6364, 2016.
ista: Moyses H, Palacci JA, Sacanna S, Grier DG. 2016. Trochoidal trajectories of
self-propelled Janus particles in a diverging laser beam. Soft Matter. 12(30),
6357–6364.
mla: Moyses, Henrique, et al. “Trochoidal Trajectories of Self-Propelled Janus Particles
in a Diverging Laser Beam.” Soft Matter, vol. 12, no. 30, Royal Society
of Chemistry , 2016, pp. 6357–64, doi:10.1039/c6sm01163b.
short: H. Moyses, J.A. Palacci, S. Sacanna, D.G. Grier, Soft Matter 12 (2016) 6357–6364.
date_created: 2021-02-01T13:44:15Z
date_published: 2016-08-14T00:00:00Z
date_updated: 2023-02-23T13:47:40Z
day: '14'
doi: 10.1039/c6sm01163b
extern: '1'
external_id:
arxiv:
- '1609.01497'
pmid:
- '27338294'
intvolume: ' 12'
issue: '30'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1609.01497
month: '08'
oa: 1
oa_version: Preprint
page: 6357-6364
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Trochoidal trajectories of self-propelled Janus particles in a diverging laser
beam
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 12
year: '2016'
...
---
_id: '7766'
abstract:
- lang: eng
text: We study the vibrational properties near a free surface of disordered spring
networks derived from jammed sphere packings. In bulk systems, without surfaces,
it is well understood that such systems have a plateau in the density of vibrational
modes extending down to a frequency scale ω*. This frequency is controlled by
ΔZ = 〈Z〉 − 2d, the difference between the average coordination of the spheres
and twice the spatial dimension, d, of the system, which vanishes at the jamming
transition. In the presence of a free surface we find that there is a density
of disordered vibrational modes associated with the surface that extends far below
ω*. The total number of these low-frequency surface modes is controlled by ΔZ,
and the profile of their decay into the bulk has two characteristic length scales,
which diverge as ΔZ−1/2 and ΔZ−1 as the jamming transition is approached.
article_processing_charge: No
article_type: original
author:
- first_name: Daniel M.
full_name: Sussman, Daniel M.
last_name: Sussman
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Andrea J.
full_name: Liu, Andrea J.
last_name: Liu
- first_name: Sidney R.
full_name: Nagel, Sidney R.
last_name: Nagel
citation:
ama: Sussman DM, Goodrich CP, Liu AJ, Nagel SR. Disordered surface vibrations in
jammed sphere packings. Soft Matter. 2015;11(14):2745-2751. doi:10.1039/c4sm02905d
apa: Sussman, D. M., Goodrich, C. P., Liu, A. J., & Nagel, S. R. (2015). Disordered
surface vibrations in jammed sphere packings. Soft Matter. Royal Society
of Chemistry. https://doi.org/10.1039/c4sm02905d
chicago: Sussman, Daniel M., Carl Peter Goodrich, Andrea J. Liu, and Sidney R. Nagel.
“Disordered Surface Vibrations in Jammed Sphere Packings.” Soft Matter.
Royal Society of Chemistry, 2015. https://doi.org/10.1039/c4sm02905d.
ieee: D. M. Sussman, C. P. Goodrich, A. J. Liu, and S. R. Nagel, “Disordered surface
vibrations in jammed sphere packings,” Soft Matter, vol. 11, no. 14. Royal
Society of Chemistry, pp. 2745–2751, 2015.
ista: Sussman DM, Goodrich CP, Liu AJ, Nagel SR. 2015. Disordered surface vibrations
in jammed sphere packings. Soft Matter. 11(14), 2745–2751.
mla: Sussman, Daniel M., et al. “Disordered Surface Vibrations in Jammed Sphere
Packings.” Soft Matter, vol. 11, no. 14, Royal Society of Chemistry, 2015,
pp. 2745–51, doi:10.1039/c4sm02905d.
short: D.M. Sussman, C.P. Goodrich, A.J. Liu, S.R. Nagel, Soft Matter 11 (2015)
2745–2751.
date_created: 2020-04-30T11:41:23Z
date_published: 2015-02-15T00:00:00Z
date_updated: 2021-01-12T08:15:23Z
day: '15'
doi: 10.1039/c4sm02905d
extern: '1'
intvolume: ' 11'
issue: '14'
language:
- iso: eng
month: '02'
oa_version: None
page: 2745-2751
publication: Soft Matter
publication_identifier:
issn:
- 1744-683X
- 1744-6848
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: Disordered surface vibrations in jammed sphere packings
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2015'
...
---
_id: '9050'
abstract:
- lang: eng
text: Self-propelled particles can exhibit surprising non-equilibrium behaviors,
and how they interact with obstacles or boundaries remains an important open problem.
Here we show that chemically propelled micro-rods can be captured, with little
change in their speed, into close orbits around solid spheres resting on or near
a horizontal plane. We show that this interaction between sphere and particle
is short-range, occurring even for spheres smaller than the particle length, and
for a variety of sphere materials. We consider a simple model, based on lubrication
theory, of a force- and torque-free swimmer driven by a surface slip (the phoretic
propulsion mechanism) and moving near a solid surface. The model demonstrates
capture, or movement towards the surface, and yields speeds independent of distance.
This study reveals the crucial aspects of activity–driven interactions of self-propelled
particles with passive objects, and brings into question the use of colloidal
tracers as probes of active matter.
article_number: '1784'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Daisuke
full_name: Takagi, Daisuke
last_name: Takagi
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Adam B.
full_name: Braunschweig, Adam B.
last_name: Braunschweig
- first_name: Michael J.
full_name: Shelley, Michael J.
last_name: Shelley
- first_name: Jun
full_name: Zhang, Jun
last_name: Zhang
citation:
ama: Takagi D, Palacci JA, Braunschweig AB, Shelley MJ, Zhang J. Hydrodynamic capture
of microswimmers into sphere-bound orbits. Soft Matter. 2014;10(11). doi:10.1039/c3sm52815d
apa: Takagi, D., Palacci, J. A., Braunschweig, A. B., Shelley, M. J., & Zhang,
J. (2014). Hydrodynamic capture of microswimmers into sphere-bound orbits. Soft
Matter. Royal Society of Chemistry . https://doi.org/10.1039/c3sm52815d
chicago: Takagi, Daisuke, Jérémie A Palacci, Adam B. Braunschweig, Michael J. Shelley,
and Jun Zhang. “Hydrodynamic Capture of Microswimmers into Sphere-Bound Orbits.”
Soft Matter. Royal Society of Chemistry , 2014. https://doi.org/10.1039/c3sm52815d.
ieee: D. Takagi, J. A. Palacci, A. B. Braunschweig, M. J. Shelley, and J. Zhang,
“Hydrodynamic capture of microswimmers into sphere-bound orbits,” Soft Matter,
vol. 10, no. 11. Royal Society of Chemistry , 2014.
ista: Takagi D, Palacci JA, Braunschweig AB, Shelley MJ, Zhang J. 2014. Hydrodynamic
capture of microswimmers into sphere-bound orbits. Soft Matter. 10(11), 1784.
mla: Takagi, Daisuke, et al. “Hydrodynamic Capture of Microswimmers into Sphere-Bound
Orbits.” Soft Matter, vol. 10, no. 11, 1784, Royal Society of Chemistry
, 2014, doi:10.1039/c3sm52815d.
short: D. Takagi, J.A. Palacci, A.B. Braunschweig, M.J. Shelley, J. Zhang, Soft
Matter 10 (2014).
date_created: 2021-02-01T13:43:31Z
date_published: 2014-03-21T00:00:00Z
date_updated: 2023-02-23T13:47:35Z
day: '21'
doi: 10.1039/c3sm52815d
extern: '1'
external_id:
arxiv:
- '1309.5662'
pmid:
- '24800268'
intvolume: ' 10'
issue: '11'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1309.5662
month: '03'
oa: 1
oa_version: Preprint
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Hydrodynamic capture of microswimmers into sphere-bound orbits
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 10
year: '2014'
...
---
_id: '10385'
abstract:
- lang: eng
text: We show how self-assembly of sticky nanoparticles can drive radial collapse
of thin-walled nanotubes. Using numerical simulations, we study the transition
as a function of the geometric and elastic parameters of the nanotube and the
binding strength of the nanoparticles. We find that it is possible to derive a
simple scaling law relating all these parameters, and estimate bounds for the
onset conditions leading to the collapse of the nanotube. We also study the reverse
process – the nanoparticle release from the folded state – and find that the stability
of the collapsed state can be greatly improved by increasing the bending rigidity
of the nanotubes. Our results suggest ways to strengthen the mechanical properties
of nanotubes, but also indicate that the control of nanoparticle self-assembly
on these nanotubes can lead to nanoparticle-laden responsive materials.
acknowledgement: This work was supported by the National Science Foundation under
Career Grant no. DMR-0846426.
article_processing_charge: No
article_type: original
author:
- first_name: Joseph A.
full_name: Napoli, Joseph A.
last_name: Napoli
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Angelo
full_name: Cacciuto, Angelo
last_name: Cacciuto
citation:
ama: Napoli JA, Šarić A, Cacciuto A. Collapsing nanoparticle-laden nanotubes. Soft
Matter. 2013;9(37):8881-8886. doi:10.1039/c3sm51495a
apa: Napoli, J. A., Šarić, A., & Cacciuto, A. (2013). Collapsing nanoparticle-laden
nanotubes. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c3sm51495a
chicago: Napoli, Joseph A., Anđela Šarić, and Angelo Cacciuto. “Collapsing Nanoparticle-Laden
Nanotubes.” Soft Matter. Royal Society of Chemistry, 2013. https://doi.org/10.1039/c3sm51495a.
ieee: J. A. Napoli, A. Šarić, and A. Cacciuto, “Collapsing nanoparticle-laden nanotubes,”
Soft Matter, vol. 9, no. 37. Royal Society of Chemistry, pp. 8881–8886,
2013.
ista: Napoli JA, Šarić A, Cacciuto A. 2013. Collapsing nanoparticle-laden nanotubes.
Soft Matter. 9(37), 8881–8886.
mla: Napoli, Joseph A., et al. “Collapsing Nanoparticle-Laden Nanotubes.” Soft
Matter, vol. 9, no. 37, Royal Society of Chemistry, 2013, pp. 8881–86, doi:10.1039/c3sm51495a.
short: J.A. Napoli, A. Šarić, A. Cacciuto, Soft Matter 9 (2013) 8881–8886.
date_created: 2021-11-29T13:31:24Z
date_published: 2013-08-08T00:00:00Z
date_updated: 2021-11-29T14:05:23Z
day: '08'
doi: 10.1039/c3sm51495a
extern: '1'
intvolume: ' 9'
issue: '37'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
month: '08'
oa_version: None
page: 8881-8886
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Collapsing nanoparticle-laden nanotubes
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 9
year: '2013'
...
---
_id: '10386'
abstract:
- lang: eng
text: In this paper we review recent numerical and theoretical developments of particle
self-assembly on fluid and elastic membranes and compare them to available experimental
realizations. We discuss the problem and its applications in biology and materials
science, and give an overview of numerical models and strategies to study these
systems across all length-scales. As this is a very broad field, this review focuses
exclusively on surface-driven aggregation of nanoparticles that are at least one
order of magnitude larger than the surface thickness and are adsorbed onto it.
In this regime, all chemical details of the surface can be ignored in favor of
a coarse-grained representation, and the collective behavior of many particles
can be monitored and analyzed. We review the existing literature on how the mechanical
properties and the geometry of the surface affect the structure of the particle
aggregates and how these can drive shape deformation on the surface.
acknowledgement: This work was supported by the National Science Foundation under
Career Grant No. DMR 0846426. The authors thank J. C. Pàmies for many fruitful discussions
on the subject.
article_number: '6677'
article_processing_charge: No
article_type: original
author:
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Angelo
full_name: Cacciuto, Angelo
last_name: Cacciuto
citation:
ama: Šarić A, Cacciuto A. Self-assembly of nanoparticles adsorbed on fluid and elastic
membranes. Soft Matter. 2013;9(29). doi:10.1039/c3sm50188d
apa: Šarić, A., & Cacciuto, A. (2013). Self-assembly of nanoparticles adsorbed
on fluid and elastic membranes. Soft Matter. Royal Society of Chemistry.
https://doi.org/10.1039/c3sm50188d
chicago: Šarić, Anđela, and Angelo Cacciuto. “Self-Assembly of Nanoparticles Adsorbed
on Fluid and Elastic Membranes.” Soft Matter. Royal Society of Chemistry,
2013. https://doi.org/10.1039/c3sm50188d.
ieee: A. Šarić and A. Cacciuto, “Self-assembly of nanoparticles adsorbed on fluid
and elastic membranes,” Soft Matter, vol. 9, no. 29. Royal Society of Chemistry,
2013.
ista: Šarić A, Cacciuto A. 2013. Self-assembly of nanoparticles adsorbed on fluid
and elastic membranes. Soft Matter. 9(29), 6677.
mla: Šarić, Anđela, and Angelo Cacciuto. “Self-Assembly of Nanoparticles Adsorbed
on Fluid and Elastic Membranes.” Soft Matter, vol. 9, no. 29, 6677, Royal
Society of Chemistry, 2013, doi:10.1039/c3sm50188d.
short: A. Šarić, A. Cacciuto, Soft Matter 9 (2013).
date_created: 2021-11-29T14:06:32Z
date_published: 2013-05-03T00:00:00Z
date_updated: 2021-11-29T14:29:31Z
day: '03'
doi: 10.1039/c3sm50188d
extern: '1'
intvolume: ' 9'
issue: '29'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
main_file_link:
- url: https://pubs.rsc.org/en/content/articlehtml/2013/sm/c3sm50188d
month: '05'
oa_version: None
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Self-assembly of nanoparticles adsorbed on fluid and elastic membranes
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 9
year: '2013'
...